classification: Retrieve the taxonomic hierarchies from local database

In ropensci/taxizedb: Tools for Working with 'Taxonomic' Databases

Retrieve the taxonomic hierarchies from local database

Description

This function is equivalent to the taxize::classification() function, except that it uses a local database (so is much faster). The output is identical to taxize::classification()

Usage

classification(x, db = "ncbi", verbose = TRUE, ...)

Arguments

x	character) Vector of taxon keys for the given database
db	character) The database to search, one of ncbi, itis, gbif, col, or wfo
verbose	(logical) Print verbose messages
...	Additional arguments passed to database specific classification functions.

Value

list of data.frames with the columns: name, rank, and id. This is exactly equivalent to the output of taxize::classification()

Examples

## Not run: 
classification(c(3702, 9606))
classification(c(154395, 154357), db="itis")
classification(c("wfo-0000291463", "wfo-7000000057"), db="wfo")
classification(2878586, db="gbif")
classification(c(2878586, 2704179), db="gbif")
classification(3960765, db="col") # Abies

## End(Not run)

ropensci/taxizedb documentation built on April 28, 2023, 2:05 a.m.